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Items: 15

1.

The bacterial interlocked process ONtology (BiPON): a systemic multi-scale unified representation of biological processes in prokaryotes.

Henry VJ, Goelzer A, Ferré A, Fischer S, Dinh M, Loux V, Froidevaux C, Fromion V.

J Biomed Semantics. 2017 Nov 23;8(1):53. doi: 10.1186/s13326-017-0165-6.

2.

Resource allocation in living organisms.

Goelzer A, Fromion V.

Biochem Soc Trans. 2017 Aug 15;45(4):945-952. doi: 10.1042/BST20160436. Epub 2017 Jul 7. Review.

PMID:
28687715
3.

Conversion of Glycerol to 3-Hydroxypropanoic Acid by Genetically Engineered Bacillus subtilis.

Kalantari A, Chen T, Ji B, Stancik IA, Ravikumar V, Franjevic D, Saulou-Bérion C, Goelzer A, Mijakovic I.

Front Microbiol. 2017 Apr 18;8:638. doi: 10.3389/fmicb.2017.00638. eCollection 2017.

4.

Optimal resource allocation enables mathematical exploration of microbial metabolic configurations.

Tournier L, Goelzer A, Fromion V.

J Math Biol. 2017 Dec;75(6-7):1349-1380. doi: 10.1007/s00285-017-1118-5. Epub 2017 Mar 30.

PMID:
28361242
5.

Translation elicits a growth rate-dependent, genome-wide, differential protein production in Bacillus subtilis.

Borkowski O, Goelzer A, Schaffer M, Calabre M, Mäder U, Aymerich S, Jules M, Fromion V.

Mol Syst Biol. 2016 May 17;12(5):870. doi: 10.15252/msb.20156608.

6.

Reconstruction of the Regulatory Network for Bacillus subtilis and Reconciliation with Gene Expression Data.

Faria JP, Overbeek R, Taylor RC, Conrad N, Vonstein V, Goelzer A, Fromion V, Rocha M, Rocha I, Henry CS.

Front Microbiol. 2016 Mar 18;7:275. doi: 10.3389/fmicb.2016.00275. eCollection 2016.

7.

Quantitative prediction of genome-wide resource allocation in bacteria.

Goelzer A, Muntel J, Chubukov V, Jules M, Prestel E, Nölker R, Mariadassou M, Aymerich S, Hecker M, Noirot P, Becher D, Fromion V.

Metab Eng. 2015 Nov;32:232-243. doi: 10.1016/j.ymben.2015.10.003. Epub 2015 Oct 21.

PMID:
26498510
8.

Comprehensive absolute quantification of the cytosolic proteome of Bacillus subtilis by data independent, parallel fragmentation in liquid chromatography/mass spectrometry (LC/MS(E)).

Muntel J, Fromion V, Goelzer A, Maaβ S, Mäder U, Büttner K, Hecker M, Becher D.

Mol Cell Proteomics. 2014 Apr;13(4):1008-19. doi: 10.1074/mcp.M113.032631. Epub 2014 Jan 31.

9.

A comparative transcriptomic, fluxomic and metabolomic analysis of the response of Saccharomyces cerevisiae to increases in NADPH oxidation.

Celton M, Sanchez I, Goelzer A, Fromion V, Camarasa C, Dequin S.

BMC Genomics. 2012 Jul 17;13:317. doi: 10.1186/1471-2164-13-317.

10.

BasyLiCA: a tool for automatic processing of a Bacterial Live Cell Array.

Aïchaoui L, Jules M, Le Chat L, Aymerich S, Fromion V, Goelzer A.

Bioinformatics. 2012 Oct 15;28(20):2705-6. doi: 10.1093/bioinformatics/bts422. Epub 2012 Jul 4.

PMID:
22764159
11.

A constraint-based model analysis of the metabolic consequences of increased NADPH oxidation in Saccharomyces cerevisiae.

Celton M, Goelzer A, Camarasa C, Fromion V, Dequin S.

Metab Eng. 2012 Jul;14(4):366-79. doi: 10.1016/j.ymben.2012.03.008. Epub 2012 Mar 26.

PMID:
22709677
12.

Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis.

Nicolas P, Mäder U, Dervyn E, Rochat T, Leduc A, Pigeonneau N, Bidnenko E, Marchadier E, Hoebeke M, Aymerich S, Becher D, Bisicchia P, Botella E, Delumeau O, Doherty G, Denham EL, Fogg MJ, Fromion V, Goelzer A, Hansen A, Härtig E, Harwood CR, Homuth G, Jarmer H, Jules M, Klipp E, Le Chat L, Lecointe F, Lewis P, Liebermeister W, March A, Mars RA, Nannapaneni P, Noone D, Pohl S, Rinn B, Rügheimer F, Sappa PK, Samson F, Schaffer M, Schwikowski B, Steil L, Stülke J, Wiegert T, Devine KM, Wilkinson AJ, van Dijl JM, Hecker M, Völker U, Bessières P, Noirot P.

Science. 2012 Mar 2;335(6072):1103-6. doi: 10.1126/science.1206848.

13.

Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism.

Buescher JM, Liebermeister W, Jules M, Uhr M, Muntel J, Botella E, Hessling B, Kleijn RJ, Le Chat L, Lecointe F, Mäder U, Nicolas P, Piersma S, Rügheimer F, Becher D, Bessieres P, Bidnenko E, Denham EL, Dervyn E, Devine KM, Doherty G, Drulhe S, Felicori L, Fogg MJ, Goelzer A, Hansen A, Harwood CR, Hecker M, Hubner S, Hultschig C, Jarmer H, Klipp E, Leduc A, Lewis P, Molina F, Noirot P, Peres S, Pigeonneau N, Pohl S, Rasmussen S, Rinn B, Schaffer M, Schnidder J, Schwikowski B, Van Dijl JM, Veiga P, Walsh S, Wilkinson AJ, Stelling J, Aymerich S, Sauer U.

Science. 2012 Mar 2;335(6072):1099-103. doi: 10.1126/science.1206871.

14.

Bacterial growth rate reflects a bottleneck in resource allocation.

Goelzer A, Fromion V.

Biochim Biophys Acta. 2011 Oct;1810(10):978-88. doi: 10.1016/j.bbagen.2011.05.014. Epub 2011 Jun 12. Review.

PMID:
21689729
15.

Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of Bacillus subtilis.

Goelzer A, Bekkal Brikci F, Martin-Verstraete I, Noirot P, Bessières P, Aymerich S, Fromion V.

BMC Syst Biol. 2008 Feb 26;2:20. doi: 10.1186/1752-0509-2-20.

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